arvados.git
5 years agoMerge branch '15467-config-fixups'
Peter Amstutz [Mon, 29 Jul 2019 19:37:32 +0000 (15:37 -0400)]
Merge branch '15467-config-fixups'

Also includes 14713-cds-new-config and 14717-ws-new-config

Updates run_test_server.py and run-tests.sh to use new config.yml

refs #14713
refs #14717
refs #15467

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15467: Test case where it ends in 'List' but isn't one
Peter Amstutz [Mon, 29 Jul 2019 19:35:59 +0000 (15:35 -0400)]
15467: Test case where it ends in 'List' but isn't one

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15467: Better CONFIGSRC check, always write config.yml in start_services
Peter Amstutz [Mon, 29 Jul 2019 19:29:53 +0000 (15:29 -0400)]
15467: Better CONFIGSRC check, always write config.yml in start_services

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15467: Test to check that reflection works as intended
Peter Amstutz [Mon, 29 Jul 2019 18:56:14 +0000 (14:56 -0400)]
15467: Test to check that reflection works as intended

Refactor a bit.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15467: Introduce "StringSet"
Peter Amstutz [Fri, 26 Jul 2019 20:21:20 +0000 (16:21 -0400)]
15467: Introduce "StringSet"

Accepts an array of strings and converts to map for backwards
compatibility.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15467: check that array config items must end in 'List'
Peter Amstutz [Wed, 24 Jul 2019 14:12:07 +0000 (10:12 -0400)]
15467: check that array config items must end in 'List'

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15467: Migrate lists to hashes
Peter Amstutz [Tue, 23 Jul 2019 18:30:06 +0000 (14:30 -0400)]
15467: Migrate lists to hashes

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15467: List to map changes (WIP)
Peter Amstutz [Tue, 23 Jul 2019 13:40:37 +0000 (09:40 -0400)]
15467: List to map changes (WIP)

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: Put setup_config back into install_env, with comments
Peter Amstutz [Mon, 29 Jul 2019 18:11:11 +0000 (14:11 -0400)]
14717: Put setup_config back into install_env, with comments

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: Make CONFIGSRC mandatory for run-tests.sh
Peter Amstutz [Mon, 29 Jul 2019 15:38:13 +0000 (11:38 -0400)]
14717: Make CONFIGSRC mandatory for run-tests.sh

Must point to a directory containing a config.yml with a cluster id of
'zzzzz' and a PostgreSQL section.

Includes a few other cleanups.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoarvbox creates /var/lib/arvados/run_tests/config.yml
Peter Amstutz [Mon, 29 Jul 2019 15:34:03 +0000 (11:34 -0400)]
arvbox creates /var/lib/arvados/run_tests/config.yml

Set CONFIGSRC when running tests in arvbox

refs #14717

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoArvbox config doesn't need to set SupportedDockerImageFormats
Peter Amstutz [Tue, 23 Jul 2019 19:33:33 +0000 (15:33 -0400)]
Arvbox config doesn't need to set SupportedDockerImageFormats

Since it is already the default, refs #15467

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoMerge branch '12020-flaky-py-test'
Tom Clegg [Mon, 29 Jul 2019 14:53:37 +0000 (10:53 -0400)]
Merge branch '12020-flaky-py-test'

refs #12020

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years agoMerge branch '15496-wb1-group-membership-admin'
Lucas Di Pentima [Fri, 26 Jul 2019 20:17:26 +0000 (17:17 -0300)]
Merge branch '15496-wb1-group-membership-admin'
Closes #15496

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

5 years ago14717: Write config file before starting test services.
Tom Clegg [Fri, 26 Jul 2019 20:00:31 +0000 (16:00 -0400)]
14717: Write config file before starting test services.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago15496: Sets default attribute to 'x' instead of nil on check_box_tag.
Lucas Di Pentima [Fri, 26 Jul 2019 13:25:10 +0000 (10:25 -0300)]
15496: Sets default attribute to 'x' instead of nil on check_box_tag.

It seems that the tag helper on rails 5.0 ignores all attributes with
falsy values.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

5 years ago15467: Explicitly configure for IPv4
Peter Amstutz [Fri, 26 Jul 2019 01:30:34 +0000 (21:30 -0400)]
15467: Explicitly configure for IPv4

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: Make sure tests use git http and keep-web URLs from config.yml
Peter Amstutz [Thu, 25 Jul 2019 20:41:03 +0000 (16:41 -0400)]
14717: Make sure tests use git http and keep-web URLs from config.yml

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: More test fixes. Configure correct websockets address.
Peter Amstutz [Thu, 25 Jul 2019 18:28:08 +0000 (14:28 -0400)]
14717: More test fixes.  Configure correct websockets address.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: Fixups since tests now use config.yml
Peter Amstutz [Thu, 25 Jul 2019 13:41:09 +0000 (09:41 -0400)]
14717: Fixups since tests now use config.yml

Also add curl oneliner to submit the current git head to developer-run-tests

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: Delete obsolete functions from run_test_server.py
Peter Amstutz [Wed, 24 Jul 2019 20:25:06 +0000 (16:25 -0400)]
14717: Delete obsolete functions from run_test_server.py

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: Refactor run_test_server.py and run_test.sh to use config.yml
Peter Amstutz [Wed, 24 Jul 2019 19:58:40 +0000 (15:58 -0400)]
14717: Refactor run_test_server.py and run_test.sh to use config.yml

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: Remove LegacyComponentConfig behavior
Peter Amstutz [Tue, 23 Jul 2019 20:32:28 +0000 (16:32 -0400)]
14717: Remove LegacyComponentConfig behavior

run-tests.sh now requires a minimal config.yml with database information.

Remove database.yml from run-tests.sh

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: Fix ws tests
Peter Amstutz [Mon, 22 Jul 2019 18:53:18 +0000 (14:53 -0400)]
14717: Fix ws tests

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: Rename WebsocketKeepaliveTimeout to SendTimeout and add a comment
Peter Amstutz [Mon, 22 Jul 2019 18:14:39 +0000 (14:14 -0400)]
14717: Rename WebsocketKeepaliveTimeout to SendTimeout and add a comment

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: Fix fallback behavior for component config vs main config
Peter Amstutz [Mon, 22 Jul 2019 17:59:36 +0000 (13:59 -0400)]
14717: Fix fallback behavior for component config vs main config

For backwards compatability, we need to be able to start with only a
component config and not the main config, and it is a fatal error if
it doesn't exist.

However, if there is a main config, and then it is okay if the
component config doesn't exist.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14717: Migrate websockets to new config
Peter Amstutz [Thu, 18 Jul 2019 20:25:50 +0000 (16:25 -0400)]
14717: Migrate websockets to new config

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14713: Fix handling default/missing keys, can't load default file
Peter Amstutz [Thu, 18 Jul 2019 14:25:44 +0000 (10:25 -0400)]
14713: Fix handling default/missing keys, can't load default file

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14713: Migrate old crunch-dispatch-slurm config to new config
Peter Amstutz [Wed, 17 Jul 2019 20:54:01 +0000 (16:54 -0400)]
14713: Migrate old crunch-dispatch-slurm config to new config

Update code to use new config.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoFix test
Peter Amstutz [Mon, 15 Jul 2019 18:02:51 +0000 (14:02 -0400)]
Fix test

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoPins mithril version to fix CI pipeline.
Lucas Di Pentima [Wed, 24 Jul 2019 21:31:46 +0000 (18:31 -0300)]
Pins mithril version to fix CI pipeline.
No issue #

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

5 years ago12020: Fix unreliable test.
Tom Clegg [Tue, 23 Jul 2019 18:02:21 +0000 (14:02 -0400)]
12020: Fix unreliable test.

test_subscribe_poll was failing occasionally due to a race (inserting
time.sleep(1) at the top of PollClient.run made the test fail
consistently).

The test now waits for PollClient to establish its _skip_old_events
filter, and then proceeds to create the event which PollClient is
expected to return.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years agoMerge branch '14287-federated-list'
Tom Clegg [Tue, 23 Jul 2019 17:24:01 +0000 (13:24 -0400)]
Merge branch '14287-federated-list'

refs #14287

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago14287: Reword filter restrictions.
Tom Clegg [Tue, 23 Jul 2019 15:27:05 +0000 (11:27 -0400)]
14287: Reword filter restrictions.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago14287: Comment multi-dimensional map.
Tom Clegg [Mon, 22 Jul 2019 17:05:35 +0000 (13:05 -0400)]
14287: Comment multi-dimensional map.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago14287: Fix comment that looked too much like real code.
Tom Clegg [Mon, 22 Jul 2019 17:05:01 +0000 (13:05 -0400)]
14287: Fix comment that looked too much like real code.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago14287: Clarify use of separate variables in goroutine.
Tom Clegg [Mon, 22 Jul 2019 17:04:07 +0000 (13:04 -0400)]
14287: Clarify use of separate variables in goroutine.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago14287: Merge branch 'master'
Tom Clegg [Mon, 22 Jul 2019 15:25:03 +0000 (11:25 -0400)]
14287: Merge branch 'master'

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years agoMerge branch '14965-arv-mount-py-three'
Eric Biagiotti [Fri, 19 Jul 2019 14:56:36 +0000 (10:56 -0400)]
Merge branch '14965-arv-mount-py-three'

refs #14965

Arvados-DCO-1.1-Signed-off-by: Eric Biagiotti <ebiagiotti@veritasgenetics.com>

5 years ago14965: Improves inode item view
Eric Biagiotti [Thu, 18 Jul 2019 19:54:31 +0000 (15:54 -0400)]
14965: Improves inode item view

Arvados-DCO-1.1-Signed-off-by: Eric Biagiotti <ebiagiotti@veritasgenetics.com>

5 years ago14965: Optimizes dict iteration
Eric Biagiotti [Thu, 18 Jul 2019 19:28:05 +0000 (15:28 -0400)]
14965: Optimizes dict iteration

Arvados-DCO-1.1-Signed-off-by: Eric Biagiotti <ebiagiotti@veritasgenetics.com>

5 years ago14965: Fixes assertRegexpMatch deprecation warning
Eric Biagiotti [Thu, 18 Jul 2019 18:52:45 +0000 (14:52 -0400)]
14965: Fixes assertRegexpMatch deprecation warning

Arvados-DCO-1.1-Signed-off-by: Eric Biagiotti <ebiagiotti@veritasgenetics.com>

5 years ago14965: Fixes resource warning when resetting run_test_server
Eric Biagiotti [Wed, 17 Jul 2019 20:29:13 +0000 (16:29 -0400)]
14965: Fixes resource warning when resetting run_test_server

Arvados-DCO-1.1-Signed-off-by: Eric Biagiotti <ebiagiotti@veritasgenetics.com>

5 years agoRemove package build dockerfiles for debian8 and ubuntu1404.
Ward Vandewege [Wed, 17 Jul 2019 19:53:46 +0000 (15:53 -0400)]
Remove package build dockerfiles for debian8 and ubuntu1404.

refs #15454

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>

5 years agoMerge branch '15028-cwl11-doc-update' refs #15028
Peter Amstutz [Wed, 17 Jul 2019 17:32:06 +0000 (13:32 -0400)]
Merge branch '15028-cwl11-doc-update' refs #15028

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15028: Add link to extensions page
Peter Amstutz [Wed, 17 Jul 2019 15:58:34 +0000 (11:58 -0400)]
15028: Add link to extensions page

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15028: Reorganize CWL documentation some more
Peter Amstutz [Wed, 17 Jul 2019 15:53:22 +0000 (11:53 -0400)]
15028: Reorganize CWL documentation some more

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoMerge branch 'master' into 14965-arv-mount-py-three
Eric Biagiotti [Wed, 17 Jul 2019 14:38:46 +0000 (10:38 -0400)]
Merge branch 'master' into 14965-arv-mount-py-three

refs #14965

Arvados-DCO-1.1-Signed-off-by: Eric Biagiotti <ebiagiotti@veritasgenetics.com>

5 years agoFix arvbox no issue #
Peter Amstutz [Wed, 17 Jul 2019 14:35:29 +0000 (10:35 -0400)]
Fix arvbox no issue #

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoMerge branch '15422-collections-prov-doc' refs #15422
Peter Amstutz [Tue, 16 Jul 2019 20:06:03 +0000 (16:06 -0400)]
Merge branch '15422-collections-prov-doc' refs #15422

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15028: Add upgrade notes about going from CWL v1.0 to v1.1
Peter Amstutz [Tue, 16 Jul 2019 19:57:28 +0000 (15:57 -0400)]
15028: Add upgrade notes about going from CWL v1.0 to v1.1

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoMerge branch '14965-arv-mount-py-three' of git.curoverse.com:arvados into 14965-arv...
Eric Biagiotti [Tue, 16 Jul 2019 18:44:35 +0000 (14:44 -0400)]
Merge branch '14965-arv-mount-py-three' of git.curoverse.com:arvados into 14965-arv-mount-py-three

refs #14965
14965

Arvados-DCO-1.1-Signed-off-by: Eric Biagiotti <ebiagiotti@veritasgenetics.com>

5 years ago14965: Removes python-llfuse package from arvbox base
Eric Biagiotti [Tue, 16 Jul 2019 18:35:48 +0000 (14:35 -0400)]
14965: Removes python-llfuse package from arvbox base

Arvados-DCO-1.1-Signed-off-by: Eric Biagiotti <ebiagiotti@veritasgenetics.com>

5 years agoRemoves python-llfuse package from arvbox base
Eric Biagiotti [Tue, 16 Jul 2019 18:35:48 +0000 (14:35 -0400)]
Removes python-llfuse package from arvbox base

Arvados-DCO-1.1-Signed-off-by: Eric Biagiotti <ebiagiotti@veritasgenetics.com>

5 years ago15422: highlight output/log/mount/container_image
Peter Amstutz [Tue, 16 Jul 2019 17:54:22 +0000 (13:54 -0400)]
15422: highlight output/log/mount/container_image

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15422: Restored collection provenance for jobs
Peter Amstutz [Tue, 16 Jul 2019 17:51:09 +0000 (13:51 -0400)]
15422: Restored collection provenance for jobs

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoMerge branch 'master' into 14965-arv-mount-py-three
Eric Biagiotti [Tue, 16 Jul 2019 16:29:04 +0000 (12:29 -0400)]
Merge branch 'master' into 14965-arv-mount-py-three

refs #14965

Arvados-DCO-1.1-Signed-off-by: Eric Biagiotti <ebiagiotti@veritasgenetics.com>

5 years ago14965: Fixes py2 installation
Eric Biagiotti [Tue, 16 Jul 2019 13:21:44 +0000 (09:21 -0400)]
14965: Fixes py2 installation

Arvados-DCO-1.1-Signed-off-by:  <ebiagiotti@veritasgenetics.com>

5 years ago15422: Add provenance and used_by to collection API doc
Peter Amstutz [Fri, 12 Jul 2019 18:31:52 +0000 (14:31 -0400)]
15422: Add provenance and used_by to collection API doc

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15422: provenance and used_by endpoints traverse containers
Peter Amstutz [Fri, 12 Jul 2019 15:41:02 +0000 (11:41 -0400)]
15422: provenance and used_by endpoints traverse containers

Fix up workbench rendering of provenance as well.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15422: Provenance for collections handles containers
Peter Amstutz [Thu, 11 Jul 2019 15:25:22 +0000 (11:25 -0400)]
15422: Provenance for collections handles containers

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15422: Collection provenance/used_by supports traversing containers
Peter Amstutz [Tue, 9 Jul 2019 20:55:09 +0000 (16:55 -0400)]
15422: Collection provenance/used_by supports traversing containers

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoMerge branch '15319-api-useful-stacktraces'
Lucas Di Pentima [Mon, 15 Jul 2019 20:59:56 +0000 (17:59 -0300)]
Merge branch '15319-api-useful-stacktraces'
Closes #15319

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

5 years ago15319: Fixes example log path and links troubleshooting page from install page.
Lucas Di Pentima [Mon, 15 Jul 2019 20:56:42 +0000 (17:56 -0300)]
15319: Fixes example log path and links troubleshooting page from install page.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

5 years agoMerge branch '14713-fix-master' refs #14713
Peter Amstutz [Mon, 15 Jul 2019 20:53:42 +0000 (16:53 -0400)]
Merge branch '14713-fix-master' refs #14713

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoFix _dbconfig
Peter Amstutz [Mon, 15 Jul 2019 19:28:30 +0000 (15:28 -0400)]
Fix _dbconfig

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoDon't set ARVADOS_CONFIG if it isn't there.
Peter Amstutz [Mon, 15 Jul 2019 18:42:34 +0000 (14:42 -0400)]
Don't set ARVADOS_CONFIG if it isn't there.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoFix testing on master
Peter Amstutz [Mon, 15 Jul 2019 18:02:51 +0000 (14:02 -0400)]
Fix testing on master

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoarvbox update go version, refactor creating cluster config.
Peter Amstutz [Mon, 15 Jul 2019 17:46:04 +0000 (13:46 -0400)]
arvbox update go version, refactor creating cluster config.

no issue #

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15319: Adds troubleshooting documentation to the Admin section.
Lucas Di Pentima [Mon, 15 Jul 2019 17:34:53 +0000 (14:34 -0300)]
15319: Adds troubleshooting documentation to the Admin section.

Explains both 15318 & 15319 features.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

5 years ago14965: Fixes port waiting regex
Eric Biagiotti [Fri, 12 Jul 2019 20:46:08 +0000 (16:46 -0400)]
14965: Fixes port waiting regex

Arvados-DCO-1.1-Signed-off-by:  <ebiagiotti@veritasgenetics.com>

5 years agoMerge branch 'master' into 15319-api-useful-stacktraces
Lucas Di Pentima [Fri, 12 Jul 2019 19:53:10 +0000 (16:53 -0300)]
Merge branch 'master' into 15319-api-useful-stacktraces

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

5 years ago15219: Tests for exception backtraces being included on the json log.
Lucas Di Pentima [Fri, 12 Jul 2019 19:50:35 +0000 (16:50 -0300)]
15219: Tests for exception backtraces being included on the json log.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

5 years ago14965: Clarifies decoding in pdh test
Eric Biagiotti [Fri, 12 Jul 2019 19:29:46 +0000 (15:29 -0400)]
14965: Clarifies decoding in pdh test

Arvados-DCO-1.1-Signed-off-by:  <ebiagiotti@veritasgenetics.com>

5 years agoMerge branch '13647-load-old-config'
Tom Clegg [Fri, 12 Jul 2019 19:05:06 +0000 (15:05 -0400)]
Merge branch '13647-load-old-config'

refs #13647

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago14965: Tweak netstat usage.
Tom Clegg [Fri, 12 Jul 2019 18:49:15 +0000 (14:49 -0400)]
14965: Tweak netstat usage.

Only list listening sockets, since those are the ones we're looking
for. (-l, not -a)

Don't truncate IP/port numbers. (-W)

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago13647: Fix default cluster config source. Comment flag usage.
Tom Clegg [Fri, 12 Jul 2019 18:06:09 +0000 (14:06 -0400)]
13647: Fix default cluster config source. Comment flag usage.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago14965: Report python 3 compatibility
Eric Biagiotti [Fri, 12 Jul 2019 17:42:11 +0000 (13:42 -0400)]
14965: Report python 3 compatibility

Arvados-DCO-1.1-Signed-off-by:  <ebiagiotti@veritasgenetics.com>

5 years ago14965: Cleans up test output by reducing resource warnings
Eric Biagiotti [Fri, 12 Jul 2019 17:35:11 +0000 (13:35 -0400)]
14965: Cleans up test output by reducing resource warnings

Arvados-DCO-1.1-Signed-off-by:  <ebiagiotti@veritasgenetics.com>

5 years ago15219: Logs exceptions with backtraces as part of the JSON log.
Lucas Di Pentima [Fri, 12 Jul 2019 15:27:05 +0000 (12:27 -0300)]
15219: Logs exceptions with backtraces as part of the JSON log.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

5 years ago14965: Mocks FreshBase _poll_time to avoid comparing mock and int
Eric Biagiotti [Fri, 12 Jul 2019 14:18:39 +0000 (10:18 -0400)]
14965: Mocks FreshBase _poll_time to avoid comparing mock and int

Arvados-DCO-1.1-Signed-off-by:  <ebiagiotti@veritasgenetics.com>

5 years ago14965: Adds encoding to keep.put argument
Eric Biagiotti [Fri, 12 Jul 2019 14:11:41 +0000 (10:11 -0400)]
14965: Adds encoding to keep.put argument

Arvados-DCO-1.1-Signed-off-by:  <ebiagiotti@veritasgenetics.com>

5 years agoMerge branch '15421-include-param-doc' closes #15421
Peter Amstutz [Thu, 11 Jul 2019 21:22:28 +0000 (17:22 -0400)]
Merge branch '15421-include-param-doc' closes #15421

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago14965: Simplifies previous fix to FuseMagicTest
Eric Biagiotti [Thu, 11 Jul 2019 21:07:10 +0000 (17:07 -0400)]
14965: Simplifies previous fix to FuseMagicTest

Arvados-DCO-1.1-Signed-off-by:  <ebiagiotti@veritasgenetics.com>

5 years ago14965: Fixes FuseMountTest encoding
Eric Biagiotti [Thu, 11 Jul 2019 21:06:00 +0000 (17:06 -0400)]
14965: Fixes FuseMountTest encoding

Arvados-DCO-1.1-Signed-off-by:  <ebiagiotti@veritasgenetics.com>

5 years ago14965: Fixes rmdir and rename op encoding
Eric Biagiotti [Thu, 11 Jul 2019 21:04:40 +0000 (17:04 -0400)]
14965: Fixes rmdir and rename op encoding

Arvados-DCO-1.1-Signed-off-by:  <ebiagiotti@veritasgenetics.com>

5 years agoMerge branch '15003-ensure-all-sample-keys'
Tom Clegg [Thu, 11 Jul 2019 21:02:38 +0000 (17:02 -0400)]
Merge branch '15003-ensure-all-sample-keys'

closes #15003

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago13647: Add MungeLegacyConfigArgs.
Tom Clegg [Thu, 11 Jul 2019 21:00:45 +0000 (17:00 -0400)]
13647: Add MungeLegacyConfigArgs.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years agoarvbox rotates its TLS certificates when they expire
Peter Amstutz [Thu, 11 Jul 2019 20:59:36 +0000 (16:59 -0400)]
arvbox rotates its TLS certificates when they expire

no issue #

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years ago15003: Ensure all map[string]* have sample keys.
Tom Clegg [Thu, 11 Jul 2019 19:51:09 +0000 (15:51 -0400)]
15003: Ensure all map[string]* have sample keys.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years agodoc: on the config migration page, make sure to include RAILS_ENV in the bundle
Ward Vandewege [Thu, 11 Jul 2019 19:47:59 +0000 (15:47 -0400)]
doc: on the config migration page, make sure to include RAILS_ENV in the bundle
commands for Workbench.

No issue #

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>

5 years agodoc: on the config migration page, make sure to include RAILS_ENV in the bundle
Ward Vandewege [Thu, 11 Jul 2019 19:45:16 +0000 (15:45 -0400)]
doc: on the config migration page, make sure to include RAILS_ENV in the bundle
commands.

No issue #

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>

5 years ago13647: Add comments.
Tom Clegg [Thu, 11 Jul 2019 19:22:22 +0000 (15:22 -0400)]
13647: Add comments.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago15421: Improve wording
Peter Amstutz [Thu, 11 Jul 2019 19:12:32 +0000 (15:12 -0400)]
15421: Improve wording

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

5 years agoMerge branch '15003-real-configs-flagged-unknown'
Tom Clegg [Thu, 11 Jul 2019 17:35:09 +0000 (13:35 -0400)]
Merge branch '15003-real-configs-flagged-unknown'

refs #15003

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago13647: ARVADOS_CONFIG env var overrides default cluster config path.
Tom Clegg [Thu, 11 Jul 2019 17:32:23 +0000 (13:32 -0400)]
13647: ARVADOS_CONFIG env var overrides default cluster config path.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years agoMerge branch '15454-stop-building-debian8-and-ubuntu1404'
Ward Vandewege [Thu, 11 Jul 2019 17:20:23 +0000 (13:20 -0400)]
Merge branch '15454-stop-building-debian8-and-ubuntu1404'

closes #15454

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>

5 years agoMerge branch '15318-ReqIds-on-api-errors'
Lucas Di Pentima [Thu, 11 Jul 2019 15:57:51 +0000 (12:57 -0300)]
Merge branch '15318-ReqIds-on-api-errors'
Closes #15318

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

5 years ago15003: Fix errant warnings on Workbench configs.
Tom Clegg [Thu, 11 Jul 2019 15:57:14 +0000 (11:57 -0400)]
15003: Fix errant warnings on Workbench configs.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

5 years ago14287: Merge branch 'master' into 14287-federated-list
Tom Clegg [Thu, 11 Jul 2019 15:13:12 +0000 (11:13 -0400)]
14287: Merge branch 'master' into 14287-federated-list

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>